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OPENSEQ.org
ATPD - ATP synthase subunit delta
UniProt: P0ABA4 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10105
Length: 177 (176)
Sequences: 1943
Seq/Len: 11.04
ATPD
Paralog alert: 0.02 [within 20: 0.00] - ratio of genomes with paralogs
GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Scaled Score Prob
80_M 92_V 3.779 1.00
20_V 103_S 3.581 1.00
31_M 70_D 3.032 1.00
152_I 163_S 2.846 1.00
130_E 136_K 2.654 1.00
110_D 142_K 2.432 1.00
119_E 122_L 2.102 1.00
122_L 141_C 2.068 1.00
58_A 82_E 1.991 1.00
118_S 121_Q 1.983 1.00
123_A 126_S 1.965 1.00
119_E 123_A 1.927 1.00
112_I 142_K 1.915 1.00
110_D 140_N 1.915 1.00
32_L 93_L 1.912 1.00
113_S 117_L 1.904 1.00
112_I 144_D 1.836 1.00
100_R 104_E 1.792 1.00
113_S 151_V 1.749 1.00
29_Q 104_E 1.734 1.00
31_M 73_G 1.718 1.00
110_D 154_R 1.7 1.00
59_E 63_A 1.693 1.00
122_L 126_S 1.646 1.00
114_A 143_I 1.644 1.00
76_L 92_V 1.624 1.00
29_Q 100_R 1.613 1.00
55_E 59_E 1.605 1.00
56_T 59_E 1.571 1.00
26_E 104_E 1.566 1.00
113_S 147_V 1.54 1.00
147_V 163_S 1.534 1.00
111_V 139_L 1.534 1.00
81_A 86_L 1.529 1.00
53_A 56_T 1.527 1.00
149_A 164_V 1.518 1.00
108_E 138_K 1.51 1.00
112_I 147_V 1.505 1.00
101_A 108_E 1.495 1.00
95_Q 98_H 1.491 1.00
147_V 152_I 1.473 1.00
24_S 70_D 1.459 1.00
151_V 162_G 1.434 1.00
111_V 153_I 1.428 1.00
33_A 97_I 1.419 1.00
19_A 28_W 1.419 1.00
62_I 78_R 1.408 1.00
65_C 69_L 1.369 0.99
127_A 130_E 1.357 0.99
113_S 141_C 1.353 0.99
123_A 127_A 1.347 0.99
15_A 76_L 1.344 0.99
29_Q 97_I 1.333 0.99
47_L 60_S 1.331 0.99
101_A 106_T 1.33 0.99
116_A 122_L 1.305 0.99
126_S 130_E 1.264 0.99
62_I 66_G 1.258 0.99
128_A 131_K 1.253 0.99
148_M 164_V 1.233 0.98
48_L 57_L 1.229 0.98
79_V 83_N 1.229 0.98
125_I 151_V 1.225 0.98
28_W 73_G 1.221 0.98
16_F 103_S 1.22 0.98
36_A 97_I 1.22 0.98
109_V 155_A 1.202 0.98
166_G 170_R 1.201 0.98
124_K 128_A 1.196 0.98
74_Q 78_R 1.19 0.98
107_A 137_V 1.187 0.98
29_Q 33_A 1.187 0.98
36_A 94_E 1.175 0.98
25_V 96_F 1.161 0.97
11_Y 85_R 1.152 0.97
111_V 117_L 1.146 0.97
106_T 138_K 1.144 0.97
127_A 131_K 1.132 0.97
44_M 64_V 1.124 0.97
16_F 99_L 1.119 0.96
26_E 30_D 1.105 0.96
62_I 74_Q 1.094 0.96
108_E 140_N 1.084 0.96
133_L 155_A 1.065 0.95
112_I 152_I 1.061 0.95
24_S 27_R 1.061 0.95
10_P 85_R 1.053 0.95
80_M 86_L 1.014 0.93
133_L 158_M 1.01 0.93
97_I 169_E 1.007 0.93
76_L 80_M 1.001 0.92
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.
HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov P(%) HHΔ   Acc
2wssS20.99441000.077Contact Map0.363
1abvA10.757199.90.383Contact Map0.64
3lg8A20.519894.80.858Contact Map0.14
4efaE10.943591.70.873Contact Map0.532
3v6iA20.898390.80.876Contact Map0.452
2dm9A20.909686.90.885Contact Map0.641
3tufA10.740112.60.936Contact Map0.46
3onjA10.446390.94Contact Map0.373
2r9vA10.71196.50.944Contact Map0.531
3cuqA10.79666.20.944Contact Map0.349
Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.
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